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Aliases for RNF17 Gene

Aliases for RNF17 Gene

  • Ring Finger Protein 17 2 3 5
  • Tudor Domain-Containing Protein 4 3 4
  • Spermatogenesis Associated 23 2 3
  • Tudor Domain Containing 4 2 3
  • TDRD4 3 4
  • SPATA23 3
  • Mmip-2 3

External Ids for RNF17 Gene

Previous HGNC Symbols for RNF17 Gene

  • TDRD4

Previous GeneCards Identifiers for RNF17 Gene

  • GC13P023318
  • GC13P019318
  • GC13P024268
  • GC13P023136
  • GC13P024236
  • GC13P025338
  • GC13P006151
  • GC13P024764

Summaries for RNF17 Gene

Entrez Gene Summary for RNF17 Gene

  • This gene is similar to a mouse gene that encodes a testis-specific protein containing a RING finger domain. Alternatively spliced transcript variants encoding different isoforms have been found. [provided by RefSeq, May 2010]

GeneCards Summary for RNF17 Gene

RNF17 (Ring Finger Protein 17) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and hydrolase activity, acting on ester bonds. An important paralog of this gene is TDRD6.

UniProtKB/Swiss-Prot for RNF17 Gene

  • Seems to be involved in regulation of transcriptional activity of MYC. In vitro, inhibits DNA-binding activity of Mad-MAX heterodimers. Can recruit Mad transcriptional repressors (MXD1, MXD3, MXD4 and MXI1) to the cytoplasm. May be involved in spermiogenesis (By similarity).

Additional gene information for RNF17 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNF17 Gene

Genomics for RNF17 Gene

GeneHancer (GH) Regulatory Elements for RNF17 Gene

Promoters and enhancers for RNF17 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH13I024764 Promoter 0.5 EPDnew 550.4 +16.5 16480 0.1 RNF17 GC13P024795 PIR31198 CENPJ
GH13I024667 Enhancer 1.1 Ensembl ENCODE dbSUPER 10.5 -77.3 -77328 5.1 CTCF KLF1 PKNOX1 SIN3A ZNF384 EBF1 FEZF1 ZIC2 RAD21 ZNF143 ATP12A RNF17 PARP4 GC13P024570
GH13I024921 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 5.3 +175.5 175464 2.6 HDGF PKNOX1 ARNT ARID4B SIN3A FEZF1 DMAP1 IRF4 YY1 POLR2B CENPJ TPTE2P1 RNF17 ENSG00000273628
GH13I024680 Promoter/Enhancer 1.1 EPDnew Ensembl 10.1 -66.9 -66850 1.4 CTCF MXI1 MAZ SP2 ZNF76 E2F1 ZFHX2 GLIS2 GLIS1 ZNF341 ATP12A RNF17 PIR43036
GH13I024694 Enhancer 1 Ensembl ENCODE 10.2 -53.5 -53495 0.4 GTF2F1 CTCF USF1 FOXA2 MLX MAX ZNF2 RAD21 ZNF507 ZNF335 ATP12A RNF17 GC13M024705 PIR43036 RNY1P7
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RNF17 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RNF17 gene promoter:

Genomic Locations for RNF17 Gene

Genomic Locations for RNF17 Gene
chr13:24,747,672-24,889,262
(GRCh38/hg38)
Size:
141,591 bases
Orientation:
Plus strand
chr13:25,338,290-25,454,059
(GRCh37/hg19)

Genomic View for RNF17 Gene

Genes around RNF17 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNF17 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNF17 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNF17 Gene

Proteins for RNF17 Gene

  • Protein details for RNF17 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BXT8-RNF17_HUMAN
    Recommended name:
    RING finger protein 17
    Protein Accession:
    Q9BXT8
    Secondary Accessions:
    • Q5T2J9
    • Q6P1W3
    • Q9BXT7
    • Q9NUY9

    Protein attributes for RNF17 Gene

    Size:
    1623 amino acids
    Molecular mass:
    184643 Da
    Quaternary structure:
    • Interacts with MXD1, MXD3, MXD4, MXI1 and PIWIL1. Self-associates (By similarity).
    SequenceCaution:
    • Sequence=AAH64847.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAA91972.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RNF17 Gene

    Alternative splice isoforms for RNF17 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RNF17 Gene

Post-translational modifications for RNF17 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RNF17 Gene

Domains & Families for RNF17 Gene

Gene Families for RNF17 Gene

Suggested Antigen Peptide Sequences for RNF17 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RNF17: view

No data available for UniProtKB/Swiss-Prot for RNF17 Gene

Function for RNF17 Gene

Molecular function for RNF17 Gene

UniProtKB/Swiss-Prot Function:
Seems to be involved in regulation of transcriptional activity of MYC. In vitro, inhibits DNA-binding activity of Mad-MAX heterodimers. Can recruit Mad transcriptional repressors (MXD1, MXD3, MXD4 and MXI1) to the cytoplasm. May be involved in spermiogenesis (By similarity).

Gene Ontology (GO) - Molecular Function for RNF17 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0042803 protein homodimerization activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RNF17: view
genes like me logo Genes that share phenotypes with RNF17: view

Animal Models for RNF17 Gene

MGI Knock Outs for RNF17:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for RNF17 Gene

Localization for RNF17 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RNF17 Gene

Cytoplasm. Nucleus. Note=Predominantly found in the cytoplasm. Component of a nuage in male germ cells (an electron-dense spherical cytoplasmic body present in late pachytene and diplotene spermatocytes and in elonging spermatids) (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RNF17 gene
Compartment Confidence
nucleus 4
mitochondrion 1
cytosol 1

Gene Ontology (GO) - Cellular Components for RNF17 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with RNF17: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for RNF17 Gene

Pathways & Interactions for RNF17 Gene

SuperPathways for RNF17 Gene

No Data Available

Interacting Proteins for RNF17 Gene

Gene Ontology (GO) - Biological Process for RNF17 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007283 spermatogenesis IEA --
GO:0007286 spermatid development IEA --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with RNF17: view

No data available for Pathways by source and SIGNOR curated interactions for RNF17 Gene

Drugs & Compounds for RNF17 Gene

No Compound Related Data Available

Transcripts for RNF17 Gene

Unigene Clusters for RNF17 Gene

Ring finger protein 17:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNF17 Gene

No ASD Table

Relevant External Links for RNF17 Gene

GeneLoc Exon Structure for
RNF17
ECgene alternative splicing isoforms for
RNF17

Expression for RNF17 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNF17 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RNF17 Gene

This gene is overexpressed in Testis (x44.4).

Protein differential expression in normal tissues from HIPED for RNF17 Gene

This gene is overexpressed in Testis (28.7), Plasma (12.3), Heart (11.8), and Bone marrow mesenchymal stem cell (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RNF17 Gene



Protein tissue co-expression partners for RNF17 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RNF17 Gene:

RNF17

SOURCE GeneReport for Unigene cluster for RNF17 Gene:

Hs.97464

mRNA Expression by UniProt/SwissProt for RNF17 Gene:

Q9BXT8-RNF17_HUMAN
Tissue specificity: Testis specific.

Evidence on tissue expression from TISSUES for RNF17 Gene

  • Adrenal gland(3.7)
genes like me logo Genes that share expression patterns with RNF17: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for RNF17 Gene

Orthologs for RNF17 Gene

This gene was present in the common ancestor of animals.

Orthologs for RNF17 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RNF17 33 34
  • 99.42 (n)
dog
(Canis familiaris)
Mammalia RNF17 33 34
  • 88.46 (n)
cow
(Bos Taurus)
Mammalia RNF17 33 34
  • 85.9 (n)
mouse
(Mus musculus)
Mammalia Rnf17 33 16 34
  • 82.47 (n)
rat
(Rattus norvegicus)
Mammalia Rnf17 33
  • 81.31 (n)
oppossum
(Monodelphis domestica)
Mammalia RNF17 34
  • 66 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 34 (a)
ManyToMany
chicken
(Gallus gallus)
Aves RNF17 33 34
  • 61.97 (n)
lizard
(Anolis carolinensis)
Reptilia RNF17 34
  • 45 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rnf17 33
  • 55.4 (n)
zebrafish
(Danio rerio)
Actinopterygii rnf17 33 34
  • 47.13 (n)
fruit fly
(Drosophila melanogaster)
Insecta qin 34
  • 13 (a)
ManyToMany
tud 34
  • 9 (a)
ManyToMany
Species where no ortholog for RNF17 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for RNF17 Gene

ENSEMBL:
Gene Tree for RNF17 (if available)
TreeFam:
Gene Tree for RNF17 (if available)

Paralogs for RNF17 Gene

Paralogs for RNF17 Gene

genes like me logo Genes that share paralogs with RNF17: view

Variants for RNF17 Gene

Sequence variations from dbSNP and Humsavar for RNF17 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1018312277 uncertain-significance, Primary Microcephaly, Recessive, Seckel syndrome 24,882,713(+) T/C genic_downstream_transcript_variant, intron_variant
rs1060499557 pathogenic, Seckel syndrome 5 24,883,255(+) ATGA/ genic_downstream_transcript_variant, intron_variant
rs113239817 uncertain-significance, likely-benign, Primary Microcephaly, Recessive, Seckel syndrome, not specified 24,883,234(+) G/A genic_downstream_transcript_variant, intron_variant
rs11620289 benign, Primary Microcephaly, Recessive, Seckel syndrome 24,882,779(+) T/C genic_downstream_transcript_variant, intron_variant
rs121434311 pathogenic, Primary autosomal recessive microcephaly 6 24,884,083(+) T/A genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RNF17 Gene

Variant ID Type Subtype PubMed ID
esv2664108 CNV deletion 23128226
esv33422 CNV loss 17666407
esv3631567 CNV loss 21293372
esv3631569 CNV loss 21293372
nsv1041986 CNV gain 25217958
nsv1053023 CNV gain 25217958
nsv1116459 OTHER inversion 24896259
nsv1153497 OTHER inversion 26484159
nsv473403 CNV novel sequence insertion 20440878

Variation tolerance for RNF17 Gene

Residual Variation Intolerance Score: 49.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.75; 89.41% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RNF17 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNF17

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RNF17 Gene

Disorders for RNF17 Gene

Additional Disease Information for RNF17

No disorders were found for RNF17 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNF17 Gene

Publications for RNF17 Gene

  1. An abundance of X-linked genes expressed in spermatogonia. (PMID: 11279525) Wang PJ … Page DC (Nature genetics 2001) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. An E2-guided E3 Screen Identifies the RNF17-UBE2U Pair as Regulator of the Radiosensitivity, Immunodeficiency, Dysmorphic Features, and Learning Difficulties (RIDDLE) Syndrome Protein RNF168. (PMID: 27903633) Guo Y … Huen MS (The Journal of biological chemistry 2017) 3 58
  4. Expression analysis of two cancer-testis genes, FBXO39 and TDRD4, in breast cancer tissues and cell lines. (PMID: 24377578) Seifi-Alan M … Najafi-Ashtiani M (Asian Pacific journal of cancer prevention : APJCP 2014) 3 58
  5. Tudor domain-containing protein 4 as a potential cancer/testis antigen in liver cancer. (PMID: 21515969) Yoon H … Kim H (The Tohoku journal of experimental medicine 2011) 3 58

Products for RNF17 Gene

Sources for RNF17 Gene

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